Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= Dr_sW_015_M22
(562 letters)
Database: Non-redundant SwissProt sequences
184,735 sequences; 68,354,980 total letters
Score E
Sequences producing significant alignments: (bits) Value
sp|O42661|SMD1_SCHPO Probable small nuclear ribonucleoprote... 42 0.001
sp|Q10013|SMD1_CAEEL Probable small nuclear ribonucleoprote... 39 0.007
sp|Q9VU02|SMD1_DROME Probable small nuclear ribonucleoprote... 39 0.007
sp|P62315|SMD1_MOUSE Small nuclear ribonucleoprotein Sm D1 ... 39 0.009
sp|Q02260|SMD1_YEAST Small nuclear ribonucleoprotein Sm D1 ... 37 0.044
>sp|O42661|SMD1_SCHPO Probable small nuclear ribonucleoprotein Sm D1 (snRNP core protein
D1) (Sm-D1)
Length = 117
Score = 41.6 bits (96), Expect = 0.001
Identities = 27/91 (29%), Positives = 40/91 (43%)
Frame = +2
Query: 8 MKLIYFLQNIKDEFVTIEMRXXXXXXXXXXSTDMKMNVTLRQATLIPNPRKLREGEDITN 187
MKL+ FL + +E V+IE++ S DM+MN L+ + R+
Sbjct: 1 MKLVRFLMKLTNETVSIELKNGTIVHGTITSVDMQMNTHLKAVKMTVKGRE--------- 51
Query: 188 FVTTYSELTVNGRNINYVVLSDELQLTEPLI 280
L++ G NI Y +L D L L LI
Sbjct: 52 -PVPVETLSIRGNNIRYYILPDSLPLDTLLI 81
>sp|Q10013|SMD1_CAEEL Probable small nuclear ribonucleoprotein Sm D1 (snRNP core protein
D1) (Sm-D1)
Length = 126
Score = 39.3 bits (90), Expect = 0.007
Identities = 26/92 (28%), Positives = 40/92 (43%), Gaps = 1/92 (1%)
Frame = +2
Query: 8 MKLIYFLQNIKDEFVTIEMRXXXXXXXXXXSTDMKMNVTLRQATL-IPNPRKLREGEDIT 184
MKL+ FL + E V IE++ D+ MN LR ++ + N ++
Sbjct: 1 MKLVRFLMKLSHETVNIELKNGTQVSGTIMGVDVAMNTHLRAVSMTVKNKEPVK------ 54
Query: 185 NFVTTYSELTVNGRNINYVVLSDELQLTEPLI 280
L++ G NI Y++L D L L LI
Sbjct: 55 -----LDTLSIRGNNIRYIILPDPLALDTLLI 81
>sp|Q9VU02|SMD1_DROME Probable small nuclear ribonucleoprotein Sm D1 (snRNP core protein
D1) (Sm-D1)
Length = 124
Score = 39.3 bits (90), Expect = 0.007
Identities = 28/91 (30%), Positives = 39/91 (42%)
Frame = +2
Query: 8 MKLIYFLQNIKDEFVTIEMRXXXXXXXXXXSTDMKMNVTLRQATLIPNPRKLREGEDITN 187
MKL+ FL + E VTIE++ D+ MN L+ R + D +
Sbjct: 1 MKLVRFLMKLSHETVTIELKNGTQIHGTITGVDVAMNTHLKSV------RMTIKNRDPVH 54
Query: 188 FVTTYSELTVNGRNINYVVLSDELQLTEPLI 280
T L++ G NI Y +L D L L LI
Sbjct: 55 LET----LSIRGNNIRYFILPDSLPLETLLI 81
>sp|P62315|SMD1_MOUSE Small nuclear ribonucleoprotein Sm D1 (snRNP core protein D1)
(Sm-D1) (Sm-D autoantigen)
sp|P62314|SMD1_HUMAN Small nuclear ribonucleoprotein Sm D1 (snRNP core protein D1)
(Sm-D1) (Sm-D autoantigen)
Length = 119
Score = 38.9 bits (89), Expect = 0.009
Identities = 26/91 (28%), Positives = 39/91 (42%)
Frame = +2
Query: 8 MKLIYFLQNIKDEFVTIEMRXXXXXXXXXXSTDMKMNVTLRQATLIPNPRKLREGEDITN 187
MKL+ FL + E VTIE++ D+ MN L+ + L+ E +
Sbjct: 1 MKLVRFLMKLSHETVTIELKNGTQVHGTITGVDVSMNTHLKAVKM-----TLKNREPV-- 53
Query: 188 FVTTYSELTVNGRNINYVVLSDELQLTEPLI 280
L++ G NI Y +L D L L L+
Sbjct: 54 ---QLETLSIRGNNIRYFILPDSLPLDTLLV 81
>sp|Q02260|SMD1_YEAST Small nuclear ribonucleoprotein Sm D1 (snRNP core protein D1)
(Sm-D1)
Length = 146
Score = 36.6 bits (83), Expect = 0.044
Identities = 28/108 (25%), Positives = 46/108 (42%), Gaps = 17/108 (15%)
Frame = +2
Query: 8 MKLIYFLQNIKDEFVTIEMRXXXXXXXXXXSTDMKMNVTLRQATL-IPNPR--------- 157
MKL+ FL+ +++E VTIE++ S +MN L L +P PR
Sbjct: 1 MKLVNFLKKLRNEQVTIELKNGTTVWGTLQSVSPQMNAILTDVKLTLPQPRLNKLNSNGI 60
Query: 158 -----KLREGEDIT--NFVTTYSELTVNGRNINYVVLSDELQLTEPLI 280
L G+ T + + + + + G I ++L D L L L+
Sbjct: 61 AMASLYLTGGQQPTASDNIASLQYINIRGNTIRQIILPDSLNLDSLLV 108
Database: Non-redundant SwissProt sequences
Posted date: Dec 6, 2005 7:40 AM
Number of letters in database: 68,354,980
Number of sequences in database: 184,735
Database: swissprot.01
Posted date: Dec 6, 2005 8:18 AM
Number of letters in database: 66,202,850
Number of sequences in database: 184,431
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 40,946,154
Number of Sequences: 369166
Number of extensions: 637168
Number of successful extensions: 1526
Number of sequences better than 10.0: 5
Number of HSP's better than 10.0 without gapping: 1515
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 1526
length of database: 68,354,980
effective HSP length: 104
effective length of database: 49,142,540
effective search space used: 4029688280
frameshift window, decay const: 40, 0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)